| 1G6P |
| ID: | 1429453386 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 66 (65) | ||
| Sequences: | 3625 (2067.7) | ||
| Seq/Len: | 55.769 | ||
| Nf(neff/√len): | 256.5 |
HHblits Results: (2013_03)
Sequences per length for each position, BEFORE the coverage/gap filter was applied
Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 55.769).
Sequences per length for each position, AFTER the coverage/gap filter was applied
Residue pairs sorted by coevolution strength:
Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.
| i | j | Scaled score | Prob |
| 27_V | 62_V | 3.476 | 1.00 |
| 51_Q | 60_A | 3.369 | 1.00 |
| 49_E | 61_H | 2.923 | 1.00 |
| 44_Q | 64_V | 2.705 | 1.00 |
| 20_D | 45_V | 2.161 | 1.00 |
| 19_K | 48_F | 1.945 | 1.00 |
| 2_R | 47_E | 1.944 | 1.00 |
| 6_K | 24_D | 1.894 | 1.00 |
| 52_E | 57_P | 1.815 | 1.00 |
| 19_K | 22_G | 1.808 | 1.00 |
| 4_K | 45_V | 1.760 | 1.00 |
| 47_E | 63_K | 1.697 | 1.00 |
| 59_A | 62_V | 1.678 | 1.00 |
| 2_R | 45_V | 1.638 | 1.00 |
| 53_G | 58_Q | 1.455 | 1.00 |
| 29_W | 38_K | 1.451 | 1.00 |
| 47_E | 65_V | 1.393 | 0.99 |
| 33_E | 61_H | 1.391 | 0.99 |
| 3_G | 17_I | 1.353 | 0.99 |
| 31_A | 60_A | 1.319 | 0.99 |
| 29_W | 32_I | 1.294 | 0.99 |
| 19_K | 23_G | 1.293 | 0.99 |
| 5_V | 46_V | 1.275 | 0.99 |
| 10_S | 41_K | 1.271 | 0.99 |
| 1_M | 19_K | 1.216 | 0.98 |
| 27_V | 40_L | 1.210 | 0.98 |
| 17_I | 46_V | 1.200 | 0.98 |
| 2_R | 20_D | 1.173 | 0.98 |
| 45_V | 65_V | 1.164 | 0.97 |
| 41_K | 44_Q | 1.151 | 0.97 |
| 53_G | 56_G | 1.135 | 0.97 |
| 10_S | 39_T | 1.119 | 0.96 |
| 4_K | 18_T | 1.114 | 0.96 |
| 33_E | 63_K | 1.077 | 0.95 |
| 8_F | 29_W | 1.061 | 0.95 |
| 6_K | 18_T | 1.057 | 0.95 |
| 12_K | 16_F | 1.000 | 0.92 |
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
- Text file of contact predictions (all 3L/2 predictions)
- Generate restraints for ROSETTA Structure Modeling
- Import to GREMLIN BETA - features includes ability to upload PDB and latest P(contact) calculation based on eLife 2015 fitting to PDB data.
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
| PDB | M | Cov | P(%) | HHΔ | |
| 1g6pA | 1 | 1 | 99.8 | -0.004 | Contact Map |
| 2kcmA | 1 | 1 | 99.8 | 0.001 | Contact Map |
| 1c9oA | 2 | 0.9848 | 99.8 | 0.019 | Contact Map |
| 2lxjA | 1 | 0.9848 | 99.8 | 0.024 | Contact Map |
| 3a0jA | 2 | 1 | 99.8 | 0.024 | Contact Map |
| 3i2zB | 2 | 0.9848 | 99.8 | 0.034 | Contact Map |
| 2lssA | 1 | 0.9848 | 99.8 | 0.039 | Contact Map |
| 3camA | 2 | 0.9848 | 99.8 | 0.04 | Contact Map |
| 3uljA | 2 | 1 | 99.8 | 0.047 | Contact Map |
| 3ts2A | 2 | 1 | 99.7 | 0.059 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)